Log In
Sign Up
about
faq
Ask a question
Latest
News
Jobs
Tutorials
Tags
Users
New Post
Latest
News
Jobs
Tutorials
Tags
Users
Log In
Sign Up
About
Limit
all time
today
this week
this month
this year
Unanswered
All posts
Sort
Update
Answers
Bookmarks
Creation
Replies
Rank
Views
Votes
Showing :
Pathview
•
reset
0
votes
0
replies
110
views
GAGE results interpretation with gene-foldchange as input for cases of all-negative foldchange
GO
KEGG
gage
pathview
7 weeks ago
danalvoronov
▴ 10
0
votes
1
reply
254
views
Help with identifying genes mapped to KEGG pathway using pathview
pathview
updated 3 months ago by
Guido Hooiveld
★ 4.0k • written 3 months ago by
Julie
• 0
0
votes
3
replies
1.5k
views
pathview error "negative length vectors are not allowed
pathview
kegg
KEGG
updated 9 months ago by
Benji Bromberg
▴ 20 • written 9 months ago by
Mauricio Diego
• 0
0
votes
0
replies
640
views
SSL connect error in e.g. pathview from R version 4 in Windows 10
pathview
SSL
curl
11 months ago
Matthias
• 0
1
vote
4
replies
1.2k
views
pathview - a species in KEGG pathway but not in 'korg'
pathview
KEGG
Oryza_sativa
12 months ago
Jiyoung Lee
• 0
1
vote
1
reply
1.4k
views
Error with Pathview: Bad Request (HTTP 400)
KEGGREST
pathview
R
updated 14 months ago by
Guido Hooiveld
★ 4.0k • written 15 months ago by
morgan.sobol
▴ 10
0
votes
2
replies
1.4k
views
pathview: Warning: Failed to download KEGG xml/png files, hsa04110 skipped!
pathview
15 months ago
덕윤
• 0
4
votes
3
replies
3.3k
views
only 0's may be mixed with negative subscripts
pathview
updated 16 months ago by
saadatabu1996
▴ 10 • written 7.5 years ago by
nature.hunger
▴ 30
1
vote
3
replies
1.3k
views
Many NAs using TAIR IDs for plotting KEGG pathways using pathview
KEGG
TAIR_IDs
KEGGdzPathwaysGEO
pathview
updated 18 months ago by
James W. MacDonald
66k • written 19 months ago by
Arctic
• 0
4
votes
6
replies
3.9k
views
Pathview unable to download pathways
clusterProfiler
KEGGgraph
clusterpr
KEGG
pathview
updated 22 months ago by
Guido Hooiveld
★ 4.0k • written 2.0 years ago by
rama
▴ 10
3
votes
13
replies
2.8k
views
pathview says my nonmodel species is unknown: "species invalid"
KEGGREST
KEGG
gage
pathview
22 months ago • updated 17 months ago
nute11a
▴ 10
0
votes
1
reply
848
views
Pathview error Warning: Parsing ./mmu04928.xml file failed, please check the file!
KEGGgraph
pathview
updated 2.0 years ago by
Guido Hooiveld
★ 4.0k • written 2.1 years ago by
k.jane.olczak
• 0
0
votes
1
reply
1.2k
views
Help with Pathview: No annotation package for a species, gene symbols not mapped!
annotation_package
not_available_in_BioConductor
pathview
updated 21 months ago by
Rocio
• 0 • written 2.4 years ago by
bertranbio
• 0
2
votes
2
replies
1.1k
views
pathview returns incorrect mappings for yeast
org.Sc.sgd.db
org.Sc
pathview
2.4 years ago
chase.mateusiak
• 0
0
votes
3
replies
1.2k
views
pathview: unable to use option "out.suffix"
pathview
updated 3.0 years ago by
Luo Weijun
★ 1.6k • written 3.0 years ago by
文祥
• 0
0
votes
2
replies
1.9k
views
Drawing custom KEGG pathways
pathview
KEGG
3.1 years ago
curiousmind007
▴ 10
1
vote
2
replies
869
views
Pathview won't render some KEGG pathways
pathview
3.1 years ago
Duncan
• 0
1
vote
2
replies
1.6k
views
PATHVIEW incorrect values being plotted in output
pathview
org.Hs.eg.db
3.2 years ago
Rodrigo
• 0
44
votes
29
replies
11k
views
.onLoad failed in loadNamespace() for 'org.Hs.eg.db'
org.Hs.eg.db
pathview
updated 3.2 years ago by
Kevin Ushey
▴ 130 • written 3.2 years ago by
Arun
▴ 160
0
votes
1
reply
993
views
News:
SBGNview manuscript on bioRxiv now
pathway
SBGNview
Reactome
pathview
PANTHER
written 3.3 years ago by
Luo Weijun
★ 1.6k
0
votes
0
replies
959
views
Job:
Biostatistics/Bioinformatics Research Scientist at UNC Charlotte
singlecellRNA-Seq
pathview
statistics
R
3.3 years ago • updated 3.2 years ago
Luo Weijun
★ 1.6k
6
votes
5
replies
1.6k
views
KEGG analysis for plasmodium
KEGG
gage
gageData
pathview
updated 3.3 years ago by
Luo Weijun
★ 1.6k • written 3.3 years ago by
MOHAMMAD
• 0
1
vote
1
reply
1.2k
views
News:
SBGNview: Data Analysis, Integration and Visualization on 5000+ Pathways/3000+ Species
SBGNview
pathways
SBGNview.data
pathview
visualization
3.3 years ago
Luo Weijun
★ 1.6k
1
vote
2
replies
1.2k
views
Can I create a gene set using GAGE?
gage
pathview
gageData
written 3.5 years ago by
Emilia
▴ 30
0
votes
1
reply
871
views
Change colors pathview
pathview
updated 3.6 years ago by
Luo Weijun
★ 1.6k • written 3.6 years ago by
da.de
▴ 30
0
votes
0
replies
957
views
Job:
Biostatistics/Bioinformatics Research Scientist at UNC Charlotte
R
statistics
pathview
singlecellRNA-Seq
3.6 years ago • updated 3.3 years ago
Luo Weijun
★ 1.6k
0
votes
0
replies
1.2k
views
Pathview: empty metabolic map
pathview
3.7 years ago
landenshanie
▴ 40
0
votes
2
replies
1.3k
views
Hightlight genes/metabolites in Pathview and ReactomePA
pathview
ReactomePA
updated 4.0 years ago by
James W. MacDonald
66k • written 4.0 years ago by
emisecherre
• 0
0
votes
0
replies
634
views
Pathview colors only matching ids?
pathview
4.0 years ago
okna0215
▴ 10
1
vote
0
replies
961
views
Pathview : why are some genes not colored?
pathview
rna-seq
4.0 years ago
okna0215
▴ 10
0
votes
1
reply
829
views
Argument map.symbol converting IDs even when its value is FALSE
pathview
updated 4.1 years ago by
Kevin Blighe
★ 3.9k • written 5.3 years ago by
arthur.vinx
• 0
0
votes
1
reply
764
views
Multiple samples in pathview with different colors
pathview
multiple samples
updated 3.1 years ago by
esteban.peguero
• 0 • written 4.4 years ago by
mshofner
• 0
0
votes
0
replies
945
views
gage function problem in R
gage
R
kegg
pathview
updated 4.4 years ago by
Michael Love
42k • written 4.4 years ago by
eozcan
• 0
4
votes
4
replies
1.9k
views
How I interpret this plot from pathview
pathview
kegg
r
pathway
4.6 years ago
AZ
▴ 30
0
votes
0
replies
996
views
KEGG pathway analysis using gage/pathview non KEGG organism duplicate K IDs
gage
pathview
KEGG
Gene enrichment analysis
4.7 years ago
MimR
• 0
0
votes
3
replies
1.3k
views
None of the genes or compounds mapped to the pathway!
pathview
AnnotationDbi
updated 4.8 years ago by
Michael Love
42k • written 4.8 years ago by
kevinvdburg
• 0
0
votes
0
replies
1.0k
views
Modifying a Pathview function which needs an internet connection so that it can work without an internet connection.
Pathview
Gene Mapping
KEGG
4.8 years ago
omarrafiqued
▴ 50
0
votes
0
replies
731
views
pathview : kegg gene ID in the visualisation ?
pathview
4.9 years ago
cedric.vmdl
• 0
0
votes
2
replies
1.2k
views
Issue with xml files downloaded with `pathview()`
pathview
kegg
xml
updated 5.0 years ago by
Luo Weijun
★ 1.6k • written 5.0 years ago by
anamaria
▴ 10
0
votes
2
replies
1.9k
views
pathview: object 'bods' not found
pathview
updated 5.0 years ago by
anamaria
▴ 10 • written 5.8 years ago by
Shi-Xiang Wang
• 0
0
votes
1
reply
857
views
Pathview won't colour even with matching IDs
pathview
5.3 years ago
francesco.gualdrini
• 0
0
votes
0
replies
809
views
Help with mapping Kegg hsa01100 using pathview
kegg
pathway
pathview
5.3 years ago
Ahdee
▴ 50
0
votes
0
replies
1.0k
views
Pathview input error: non-numeric variable in data frame
pathview
kegg
pathways
package
5.8 years ago
anc.informatics
• 0
1
vote
5
replies
3.1k
views
KEGG enrichment for non-model
kegg
pathway analysis
non-model
gage
pathview
updated 3.0 years ago by
najib
• 0 • written 6.0 years ago by
bekah
▴ 40
0
votes
4
replies
2.8k
views
pathview: Warning: Download of hsa04110 xml and png files failed!
pathview
6.0 years ago
masamiwata
• 0
1
vote
4
replies
1.6k
views
Pathview error: ran fine yesterday
pathview
updated 6.1 years ago by
Martin Morgan
25k • written 7.1 years ago by
Epic Tinus
▴ 10
0
votes
1
reply
1.7k
views
Pathview results interpretation
pathview
interpretation
6.1 years ago
Aurora
▴ 20
0
votes
2
replies
3.7k
views
Cannot open URL 'http://rest.kegg.jp/get/osaNA/kgml': HTTP status was '400 Bad Request'
gage
gage package
pathview
rna-seq
updated 2.3 years ago by
Helen
• 0 • written 6.4 years ago by
tarun2
• 0
0
votes
0
replies
1.3k
views
pathview and gage server connection issue
pathview
gage
pathway analysis
kegg
visualization
6.4 years ago
Luo Weijun
★ 1.6k
1
vote
1
reply
1.5k
views
Highlight ECs by KEGG module
pathview
KEGG
updated 6.6 years ago by
Luo Weijun
★ 1.6k • written 6.6 years ago by
wrodriguez
• 0
50 results • Page
1 of 1
Recent ...
Replies
Comment: Mapping Between GenBank ID's and Uniprot
by
James W. MacDonald
66k
Also, ``` > result <- mapUniProt( from = "EMBL-GenBank-DDBJ_CDS", to = "UniProtKB", query = c("ACF95883.1") ) > result From…
Comment: Mapping Between GenBank ID's and Uniprot
by
James W. MacDonald
66k
Ugh, here's the link https://www.uniprot.org/id-mapping/uniprotkb/dd08aa16774d98ef087dc3bd708582012bba49e2/overview?fields=accession%2Cre…
Answer: Mapping Between GenBank ID's and Uniprot
by
James W. MacDonald
66k
The input should be 'EMBL-GenBank-DDBJ_CDS", as that is a GenBank ID.
Answer: XCMS2 of orbitrap data
by
Elodie
• 0
Hi, I have the same question, I have acquired MS2 data with PRM analysis and inclusion lists of several ions. I have a list of product ion…
Answer: unreal negative log2fc values
by
ATpoint
★ 4.2k
I don't see why this is unrealistic. A logFC of -10 is about -1000 on normal scale. The rough difference between the mean of these counts p…
Votes
Answer: EPIC array hg38 annotation?
Answer: Why does DESeq2 give negative log2 fold change in treatment vs control for some
Comment: Error while installing BiocManager::install("org.Vdahliae.eg.db")
Comment: Ranking the GSEA Results
Error in `$<-.data.frame`(`*tmp*`, "dispersion", value = NA)
Awards
• All
Popular Question
to
jonellevillar
• 0
Popular Question
to
twtoal
▴ 10
Popular Question
to
mikat
• 0
Popular Question
to
mohammedtoufiq91
▴ 10
Popular Question
to
ATpoint
★ 4.2k
Locations
• All
WEHI, Melbourne, Australia,
10 minutes ago
United States,
37 minutes ago
United States,
38 minutes ago
European Union,
1 hour ago
United States,
2 hours ago
Traffic: 1039 users visited in the last hour
Content
Search
Users
Tags
Badges
Help
About
FAQ
Access
RSS
API
Stats
Use of this site constitutes acceptance of our
User Agreement and Privacy Policy
.
Powered by the
version 2.3.6